Hi Tom,
Wow! Thanks. I'll give it a try tomorrow. This may really help!
Cheers,
Darrell
--
Darrell Hurt, Ph.D.
Section Head, Computational Biology
Bioinformatics and Computational Biosciences Branch (BCBB)
OCICB/OSMO/OD/NIAID/NIH
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On 6/2/14 7:53 PM, "Tom Goddard" <goddard at sonic.net> wrote:
>Hi Darrell,
>> I added a Chimera Fetch dialog entry ³PDB biounit² that will fetch all
>the biological assembly files for a pdb id ‹ there can be more than one.
>Also they can be fetched using the Chimera command:
>> open pdbbuID:2bbv
>> Will be in tonight¹s daily build.
>> Tom
>>>On Jun 2, 2014, at 2:19 PM, Hurt, Darrell (NIH/NIAID) [E] wrote:
>>> Hi Elaine,
>>>> No problem. We'll work around it. I just wanted you to know that
>>someone else was interested in it, too.
>>>> :)
>>>> Thanks,
>> Darrell
>>>> --
>> Darrell Hurt, Ph.D.
>> Section Head, Computational Biology
>> Bioinformatics and Computational Biosciences Branch (BCBB)
>> OCICB/OSMO/OD/NIAID/NIH
>>>> 31 Center Drive, Room 3B62B, MSC 2135
>> Bethesda, MD 20892-2135
>> Office: 301-402-0095
>> Mobile: 301-758-3559
>> Web: BCBB Home
>>Page<http://www.niaid.nih.gov/about/organization/odoffices/omo/ocicb/Page>>s/bcbb.aspx#niaid_inlineNav_Anchor>
>> Twitter: @niaidbioit<https://twitter.com/niaidbioit>
>>>> Disclaimer: The information in this e-mail and any of its attachments
>>is confidential and may contain sensitive information. It should not be
>>used by anyone who is not the original intended recipient. If you have
>>received this e-mail in error please inform the sender and delete it
>>from your mailbox or any other storage devices. National Institute of
>>Allergy and Infectious Diseases shall not accept liability for any
>>statements made that are sender's own and not expressly made on behalf
>>of the NIAID by one of its representatives.
>>>> From: Elaine Meng
>> Reply-To:
>>"chimera-users at cgl.ucsf.edu<mailto:chimera-users at cgl.ucsf.edu> BB"
>><chimera-users at cgl.ucsf.edu<mailto:chimera-users at cgl.ucsf.edu>>
>> Date: Monday, June 2, 2014 5:18 PM
>> To: Darrell Hurt <>
>> Cc: "chimera-users at cgl.ucsf.edu<mailto:chimera-users at cgl.ucsf.edu> BB"
>><chimera-users at cgl.ucsf.edu<mailto:chimera-users at cgl.ucsf.edu>>
>> Subject: Re: [Chimera-users] Fetch biological unit?
>>>> Hi Darrell!
>> Sorry, there isn't any PDB biological unit fetch Š one has to download
>>them from the RCSB website, then open "manually" in Chimera. We have
>>discussed changing from PQS to PISA in the fetch interface (trac ticket
>>#10237), but it hasn't been done.
>> Best regards,
>> Elaine
>> ----------
>> Elaine C. Meng, Ph.D.
>> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
>> Department of Pharmaceutical Chemistry
>> University of California, San Francisco
>>>> On Jun 2, 2014, at 10:18 AM, "Hurt, Darrell (NIH/NIAID) [E]" wrote:
>>>> Hi Chimera friends,
>> The PQS server still works well for downloading the biological unit,
>>but (as noted) it doesn't have every structure in it. The PDB itself
>>provides the biological unit(s) for download in their weird ".pdb1",
>>".pdb2", etc. format for every entry in the database (even if it is
>>redundant). Is there a way to grab those files from the PDB itself using
>>the Chimera interface? The repository is in:
>>ftp://ftp.wwpdb.org/pub/pdb/data/biounit/coordinates>> Thanks,
>> Darrell
>>>>>>>> _______________________________________________
>> Chimera-users mailing list
>>Chimera-users at cgl.ucsf.edu>>http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users>>>